Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   LPC20_RS03685 Genome accession   NZ_AP025185
Coordinates   875251..876612 (-) Length   453 a.a.
NCBI ID   WP_229326603.1    Uniprot ID   -
Organism   Flavobacterium ammonificans strain SHINM13     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 870251..881612
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPC20_RS03670 (SHINM13_07190) ileS 870740..874141 (+) 3402 WP_229326601.1 isoleucine--tRNA ligase -
  LPC20_RS03675 (SHINM13_07200) - 874148..874528 (+) 381 WP_229326602.1 TraR/DksA family transcriptional regulator -
  LPC20_RS03680 (SHINM13_07210) - 874646..875248 (+) 603 WP_229327124.1 lipoprotein signal peptidase -
  LPC20_RS03685 (SHINM13_07220) radA 875251..876612 (-) 1362 WP_229326603.1 DNA repair protein RadA Machinery gene
  LPC20_RS03690 (SHINM13_07230) panD 876743..877093 (-) 351 WP_229326604.1 aspartate 1-decarboxylase -
  LPC20_RS03695 (SHINM13_07240) panC 877108..877956 (-) 849 WP_229326605.1 pantoate--beta-alanine ligase -
  LPC20_RS03700 (SHINM13_07250) - 878064..878876 (+) 813 WP_229326606.1 glycogen/starch synthase -
  LPC20_RS03705 (SHINM13_07260) - 878893..880464 (+) 1572 WP_229326607.1 DUF4270 domain-containing protein -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49755.15 Da        Isoelectric Point: 6.0986

>NTDB_id=90386 LPC20_RS03685 WP_229326603.1 875251..876612(-) (radA) [Flavobacterium ammonificans strain SHINM13]
MSKVKTTFFCQNCGTQYAKWQGQCNACKEWNTIAEEIVQKQEKVAWKSEPTSAGKAPKPLRINEIDSAQEIRLDTTDNEL
NRVLGGGIVPGSLILLGGEPGIGKSTLLLQISLSLPYKTLYVSGEESQKQIKMRAERITPNGDNCYILTETKTQNIFKQI
EAIQPEIVIIDSIQTLHTDYIESTPGSISQIRETTAELIKFAKETNTPVILIGHITKDGTIAGPKILEHMVDTVLQFEGD
RNHVYRILRSLKNRFGSTAEIGIYEMLGSGLREVSNPSEILISHKDEELSGTAIATTLEGMRPLMLEIQALVSTAVYGTP
QRSTTGYNAKRLNMILAVLEKRAGFRLGAKDVFLNITGGISVDDPAIDLAVVAAILSSNEDIPVNKDFCFAGEVGLSGEI
RPVNRVDQRIQEAEKLGFSTIFVSKYNKIALKNTGIKIRLVAKIEDVAGELFG

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=90386 LPC20_RS03685 WP_229326603.1 875251..876612(-) (radA) [Flavobacterium ammonificans strain SHINM13]
ATGTCGAAAGTGAAAACTACTTTTTTCTGTCAAAACTGCGGAACGCAATATGCCAAATGGCAAGGGCAATGCAATGCCTG
TAAAGAATGGAACACCATTGCGGAAGAAATTGTTCAGAAACAAGAAAAAGTAGCATGGAAAAGCGAACCGACAAGCGCTG
GAAAAGCACCAAAACCCTTGCGAATAAATGAAATCGACTCAGCGCAAGAAATTCGTCTAGACACTACAGACAACGAATTG
AATCGCGTTTTAGGAGGCGGAATTGTCCCGGGTTCCTTAATTCTTTTGGGAGGCGAACCGGGTATTGGAAAAAGTACGCT
TTTATTACAAATTTCGCTTAGCTTACCCTATAAAACATTATATGTTTCGGGGGAAGAGAGTCAGAAACAAATCAAAATGC
GTGCAGAACGCATTACGCCAAATGGCGATAATTGCTATATTCTGACCGAAACCAAAACACAGAATATCTTCAAACAAATT
GAAGCCATCCAACCTGAAATCGTCATTATAGATTCGATTCAAACGCTGCATACCGATTATATTGAATCTACACCAGGTAG
TATTTCTCAAATTAGAGAAACTACAGCTGAACTAATAAAGTTTGCCAAAGAAACCAATACACCTGTTATTTTAATTGGTC
ACATCACTAAAGACGGAACCATAGCTGGACCGAAAATTTTGGAACACATGGTCGATACGGTTTTACAATTTGAAGGCGAC
CGAAATCATGTGTACCGTATTTTACGTTCGTTAAAAAATCGTTTTGGCTCCACTGCCGAAATCGGAATATACGAAATGTT
AGGCAGCGGCTTACGCGAAGTATCCAATCCTTCTGAAATTTTGATTTCACACAAAGACGAAGAATTGTCAGGTACTGCTA
TTGCTACTACTTTGGAAGGTATGCGTCCTTTGATGCTCGAAATACAAGCTTTAGTCAGCACGGCAGTATACGGAACACCG
CAACGTAGTACAACGGGATACAATGCCAAAAGACTGAATATGATTTTGGCGGTTTTGGAAAAACGTGCTGGTTTCCGTTT
GGGTGCTAAAGACGTTTTCTTGAACATCACTGGAGGCATTTCCGTGGATGATCCAGCTATTGATTTGGCAGTGGTGGCCG
CTATTTTATCTTCTAATGAAGACATTCCTGTGAACAAAGATTTTTGTTTTGCAGGCGAAGTAGGCCTTTCAGGCGAAATT
AGACCTGTAAACCGCGTAGATCAACGCATCCAAGAAGCTGAAAAATTGGGATTTTCAACTATTTTTGTATCCAAATACAA
CAAAATTGCCTTGAAAAATACAGGAATTAAAATCCGTTTGGTTGCCAAAATTGAAGATGTGGCTGGCGAATTATTTGGAT
AA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(9-35)

Subunit ChlI of Mg-chelatase (ChlI)

(316-427)

AAA domain (AAA_25)

(66-219)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  radA Streptococcus pneumoniae D39

51.522

94.26

0.486
  radA Streptococcus mitis SK321

51.522

94.26

0.486
  radA Streptococcus pneumoniae Rx1

51.522

94.26

0.486
  radA Streptococcus mitis NCTC 12261

51.522

94.26

0.486
  radA Streptococcus pneumoniae R6

51.522

94.26

0.486
  radA Streptococcus pneumoniae TIGR4

51.522

94.26

0.486
  radA Bacillus subtilis subsp. subtilis str. 168

48

99.338

0.477

Multiple sequence alignment